Variant report
| Variant | rs1925764 |
|---|---|
| Chromosome Location | chr6:28808843-28808844 |
| allele | A/G |
| Outlinks | Ensembl UCSC |
- TF binding region (count:0)
- CpG islands (count:0)
- Chromatin interactive region (count:9)
- LncRNA region (count:0)
- Mature miRNA region (count: 0)
- miRNA target sites (count:0)
| No data |
| No data |
(count:9 , 50 per page) page:
1
| No. | Distal block | Cell Line | Cell type | Cell Stage |
|---|---|---|---|---|
| 1 | chr6:28806762..28809202-chr6:28828058..28830893,2 | MCF-7 | breast: | |
| 2 | chr6:28807797..28809537-chr6:28919515..28922301,2 | K562 | blood: | |
| 3 | chr6:28808316..28811196-chr6:28890836..28893295,2 | MCF-7 | breast: | |
| 4 | chr6:28807137..28808849-chr6:28873359..28874994,2 | K562 | blood: | |
| 5 | chr6:28803772..28808857-chr6:28906937..28913057,11 | K562 | blood: | |
| 6 | chr6:28805049..28806796-chr6:28807543..28810088,2 | MCF-7 | breast: | |
| 7 | chr6:28806019..28808869-chr6:28827811..28829720,2 | K562 | blood: | |
| 8 | chr6:28805285..28809041-chr6:28890242..28892830,8 | K562 | blood: | |
| 9 | chr6:28808787..28809525-chr6:28890975..28891547,2 | MCF-7 | breast: |
| No data |
| No data |
| No data |
| Variant related genes | Relation type |
|---|---|
| ENSG00000225173 | Chromatin interaction |
| ENSG00000213916 | Chromatin interaction |
| ENSG00000204713 | Chromatin interaction |
| ENSG00000204709 | Chromatin interaction |
rSNPs within LD-proxies of this variant (count:15)
| rs_ID | r2[population] |
|---|---|
| rs11753443 | 0.83[EUR][1000 genomes] |
| rs11963531 | 0.84[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs11966136 | 0.83[EUR][1000 genomes] |
| rs11966708 | 0.83[EUR][1000 genomes] |
| rs6929090 | 0.83[ASN][1000 genomes] |
| rs73407249 | 0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.83[ASN][1000 genomes] |
| rs73407250 | 0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[ASN][1000 genomes] |
| rs7739709 | 0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7762991 | 0.92[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs7763504 | 0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[ASN][1000 genomes] |
| rs9461478 | 0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs9468420 | 0.92[EUR][1000 genomes];0.81[ASN][1000 genomes] |
| rs9468430 | 0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9501112 | 0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes] |
| rs9501420 | 0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes] |
Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page:
1
| No. | Variant name | Chromosome position | Chromatin state | Related regulatory elements | Target genes | Extended variants | Associated traits |
|---|---|---|---|---|---|---|---|
| 1 | nsv534089 | chr6:28636972-28841640 | Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription | TF binding regionCpG islandChromatin interactive regionlncRNA | 43 gene(s) | inside rSNPs | diseases |
| 2 | nsv883518 | chr6:28792477-28911802 | Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 56 gene(s) | inside rSNPs | diseases |
| 3 | nsv883519 | chr6:28792477-28936556 | Transcr. at gene 5' and 3' Genic enhancers Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats | TF binding regionCpG islandChromatin interactive regionlncRNA | 57 gene(s) | inside rSNPs | diseases |
| 4 | esv3403240 | chr6:28808022-28832799 | Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' | TF binding regionCpG islandChromatin interactive regionlncRNA | 17 gene(s) | inside rSNPs | diseases |
| No data |
Chromatin state (count:0 , 50 per page) page:
| No data |
